ELECTRON MICROSCOPY

Sample

A two-component Family 2B encapsulin shell from Streptomyces lydicus with enriched encapsulin 2

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details Blot force: 20 Blot time: 4 seconds Wait time: 0 seconds
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 155190
Reported Resolution (Å) 2.59
Resolution Method FSC 0.143 CUT-OFF
Other Details The map was generated by homogeneous refinement against the initial ab-initio map using I symmetry, per-particle defocus optimization, and per-group CTF parameter optimization.
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol FLEXIBLE FIT
Refinement Target correlation coefficient
Overall B Value 114.4
Fitting Procedure ?
Details The starting encapsulin model was first placed into the map using ChimeraX. It was then refined against the map by alternating rounds of manual refinements in Coot and real-space refinement in PHENIX.
Data Acquisition
Detector Type GATAN K3 BIOQUANTUM (6k x 4k)
Electron Dose (electrons/Å2) 54
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TITAN KRIOS
Minimum Defocus (nm) 500
Maximum Defocus (nm) 1000
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS ?
Imaging Mode BRIGHT FIELD
Specimen Holder Model ?
Nominal Magnification 105000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details ?
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION cryoSPARC v3.1.0
IMAGE ACQUISITION Leginon ?
CTF CORRECTION cryoSPARC v3.1.0
MODEL FITTING UCSF ChimeraX v 1.2.5
INITIAL EULER ASSIGNMENT cryoSPARC v3.1.0
FINAL EULER ASSIGNMENT cryoSPARC v3.1.0
RECONSTRUCTION cryoSPARC v3.1.0
MODEL REFINEMENT Coot 0.8.9.1
MODEL REFINEMENT PHENIX 1.20.1-4487
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION ?